{
  "_id": "6a2e88073efcd9bda431a74b",
  "Package": "vcpen",
  "Type": "Package",
  "Title": "Penalized Variance Components Analysis",
  "Version": "1.9",
  "Date": "2022-01-02",
  "Authors@R": "c(person(\"Jason\", \"Sinnwell\", email = \"sinnwell.jason@mayo.edu\", comment=c(ORCID=\"0000-0003-1964-5522\"), role = c(\"aut\",\"cre\"),), person(\"Daniel\", \"Schaid\", email = \"schaid.daniel@mayo.edu\", comment=c(ORCID=\"0000-0003-1457-6433\"), role = c(\"aut\")))",
  "Description": "Method to perform penalized variance component analysis.",
  "License": "GPL (>= 3)",
  "NeedsCompilation": "yes",
  "RoxygenNote": "7.1.2",
  "VignetteBuilder": "knitr",
  "URL": "https://cran.r-project.org/package=vcpen",
  "Packaged": {
    "Date": "2026-06-14 10:49:20 UTC",
    "User": "root"
  },
  "Author": "Jason Sinnwell [aut, cre]\n(<https://orcid.org/0000-0003-1964-5522>), Daniel Schaid [aut]\n(<https://orcid.org/0000-0003-1457-6433>)",
  "Maintainer": "Jason Sinnwell <sinnwell.jason@mayo.edu>",
  "Repository": "https://cran.r-universe.dev",
  "Date/Publication": "2022-01-03 15:40:02 UTC",
  "RemoteUrl": "https://github.com/cran/vcpen",
  "RemoteRef": "HEAD",
  "RemoteSha": "23fbe39df5dde0a3d0e6e89d689a91155ce7850b",
  "MD5sum": "4a97ead7186e41cdc48112e7b9a208b0",
  "_user": "cran",
  "_type": "src",
  "_file": "vcpen_1.9.tar.gz",
  "_fileid": "f35a97e208247e5a706f835f2963e1dfb890cca05bf34a045cf4a23324fab806",
  "_filesize": 124735,
  "_sha256": "f35a97e208247e5a706f835f2963e1dfb890cca05bf34a045cf4a23324fab806",
  "_created": "2026-06-14T10:49:20.000Z",
  "_published": "2026-06-14T10:52:55.165Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 81271364200,
      "time": 164,
      "config": "linux-devel-arm64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7620256188"
    },
    {
      "job": 81271364208,
      "time": 148,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7620254499"
    },
    {
      "job": 81271364196,
      "time": 160,
      "config": "linux-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7620255791"
    },
    {
      "job": 81271364197,
      "time": 164,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7620256160"
    },
    {
      "job": 81271140566,
      "time": 208,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7620237244"
    },
    {
      "job": 81271364182,
      "time": 140,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7620253477"
    }
  ],
  "_buildurl": "https://github.com/r-universe/cran/actions/runs/27496291637",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/cran/vcpen",
  "_commit": {
    "id": "23fbe39df5dde0a3d0e6e89d689a91155ce7850b",
    "author": "Jason Sinnwell <sinnwell.jason@mayo.edu>",
    "committer": "cran-robot <csardi.gabor+cran@gmail.com>",
    "message": "version 1.9\n",
    "time": 1641224402
  },
  "_maintainer": {
    "name": "Jason Sinnwell",
    "email": "sinnwell.jason@mayo.edu",
    "login": "sinnweja",
    "description": "Statistician/Programmer working in cancer genomics",
    "uuid": 8126016,
    "orcid": "0000-0003-1964-5522"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.0.0",
      "role": "Depends"
    },
    {
      "package": "methods",
      "role": "Depends"
    },
    {
      "package": "Rcpp",
      "role": "LinkingTo"
    },
    {
      "package": "RcppArmadillo",
      "role": "LinkingTo"
    },
    {
      "package": "knitr",
      "role": "Imports"
    },
    {
      "package": "Rcpp",
      "version": ">= 1.0.0",
      "role": "Imports"
    },
    {
      "package": "RcppArmadillo",
      "version": ">= 0.8.0",
      "role": "Imports"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    }
  ],
  "_owner": "cran",
  "_selfowned": false,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_stars": 0,
  "_contributors": [
    {
      "user": "sinnweja",
      "count": 4,
      "uuid": 8126016
    }
  ],
  "_userbio": {
    "uuid": 6899542,
    "type": "organization",
    "name": "cran",
    "followers": 606,
    "description": "Unofficial read-only mirror of all CRAN R packages"
  },
  "_downloads": {
    "count": 182,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/vcpen"
  },
  "_searchresults": 2,
  "_topics": [
    "openblas",
    "cpp"
  ],
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "extra/vcpen.html",
    "manual.pdf"
  ],
  "_realowner": "sinnweja",
  "_cranurl": false,
  "_releases": [
    {
      "version": "1.6",
      "date": "2020-07-01"
    },
    {
      "version": "1.7",
      "date": "2020-07-20"
    },
    {
      "version": "1.8",
      "date": "2020-08-25"
    },
    {
      "version": "1.9",
      "date": "2022-01-03"
    }
  ],
  "_exports": [
    "kernel_linear",
    "minque",
    "summary.vcpen",
    "vcpen"
  ],
  "_datasets": [
    {
      "name": "covmat",
      "title": "Example data for Penalized Variance Component method",
      "object": "vcexample",
      "file": "vcexample.RData",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "x0",
        "x1"
      ],
      "rows": 100,
      "table": true,
      "tojson": true
    },
    {
      "name": "dose",
      "title": "Example data for Penalized Variance Component method",
      "object": "vcexample",
      "file": "vcexample.RData",
      "class": [
        "matrix",
        "array"
      ],
      "fields": [
        "snp1",
        "snp2",
        "snp3",
        "snp4",
        "snp5",
        "snp6",
        "snp7",
        "snp8",
        "snp9",
        "snp10",
        "snp11",
        "snp12",
        "snp13",
        "snp14",
        "snp15",
        "snp16",
        "snp17",
        "snp18",
        "snp19",
        "snp20",
        "snp21",
        "snp22",
        "snp23",
        "snp24",
        "snp25",
        "snp26",
        "snp27",
        "snp28",
        "snp29",
        "snp30",
        "snp31",
        "snp32",
        "snp33",
        "snp34",
        "snp35",
        "snp36",
        "snp37",
        "snp38",
        "snp39",
        "snp40",
        "snp41",
        "snp42",
        "snp43",
        "snp44",
        "snp45",
        "snp46",
        "snp47",
        "snp48",
        "snp49",
        "snp50",
        "snp51",
        "snp52",
        "snp53",
        "snp54",
        "snp55",
        "snp56",
        "snp57",
        "snp58",
        "snp59",
        "snp60",
        "snp61",
        "snp62",
        "snp63",
        "snp64",
        "snp65",
        "snp66",
        "snp67",
        "snp68",
        "snp69",
        "snp70"
      ],
      "rows": 100,
      "table": true,
      "tojson": true
    },
    {
      "name": "doseinfo",
      "title": "Example data for Penalized Variance Component method",
      "object": "vcexample",
      "file": "vcexample.RData",
      "class": [
        "data.frame"
      ],
      "fields": [
        "index",
        "vcname"
      ],
      "rows": 70,
      "table": true,
      "tojson": true
    },
    {
      "name": "response",
      "title": "Example data for Penalized Variance Component method",
      "object": "vcexample",
      "file": "vcexample.RData",
      "class": [
        "numeric"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "kernel_linear",
      "title": "Variance Component Linear Kernel Matrix",
      "topics": [
        "kernel_linear"
      ]
    },
    {
      "page": "minque",
      "title": "MINQUE estimation of variance components",
      "topics": [
        "minque"
      ]
    },
    {
      "page": "vcexample",
      "title": "Example data for Penalized Variance Component method",
      "topics": [
        "covmat",
        "dose",
        "doseinfo",
        "response",
        "vcexample"
      ]
    },
    {
      "page": "vcpen",
      "title": "Penalized Variance Components",
      "topics": [
        "summary.vcpen",
        "vcpen"
      ]
    }
  ],
  "_readme": "https://github.com/cran/vcpen/raw/HEAD/README.md",
  "_rundeps": [
    "evaluate",
    "highr",
    "knitr",
    "Rcpp",
    "RcppArmadillo",
    "xfun",
    "yaml"
  ],
  "_sysdeps": [
    {
      "shlib": "liblapack",
      "package": "libopenblas0-pthread",
      "source": "openblas",
      "version": "0.3.26+ds-1ubuntu0.1",
      "name": "openblas",
      "homepage": "https://www.openblas.net/",
      "description": "Optimized BLAS (linear algebra) library (shared lib, pthread)"
    },
    {
      "shlib": "libblas",
      "package": "libopenblas0-pthread",
      "source": "openblas",
      "version": "0.3.26+ds-1ubuntu0.1",
      "name": "openblas",
      "homepage": "https://www.openblas.net/",
      "description": "Optimized BLAS (linear algebra) library (shared lib, pthread)"
    },
    {
      "shlib": "libstdc++",
      "package": "libstdc++6",
      "source": "gcc",
      "version": "14.2.0-4ubuntu2~24.04.1",
      "name": "c++",
      "homepage": "http://gcc.gnu.org/",
      "description": "GNU Standard C++ Library v3"
    }
  ],
  "_vignettes": [
    {
      "source": "vcpen.Rmd",
      "filename": "vcpen.html",
      "title": "Penalized Variance Components",
      "author": "JP Sinnwell, DJ Schaid",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Overview of the vcpen package for Penalized Variance Components",
        "Preparing to run vcpen",
        "Sample dataset",
        "Make kernel matrices",
        "Penalized estimation of VCs",
        "Default settings.",
        "Changing penalty fraction:",
        "Demo of using minque() outside of vcpen()",
        "References"
      ],
      "created": "2020-07-01 13:10:03",
      "modified": "2020-07-01 13:10:03",
      "commits": 1
    }
  ],
  "_score": 2.6989700043360187,
  "_indexed": false,
  "_nocasepkg": "vcpen",
  "_universes": [
    "cran"
  ],
  "_indexurl": "https://sinnweja.r-universe.dev/vcpen",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.9",
      "date": "2026-06-14T10:51:57.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "23fbe39df5dde0a3d0e6e89d689a91155ce7850b",
      "fileid": "9750ecb4cc4b538cd61a4c1b7f25e0cb385e0893d4f3bcd586c3e48801f4d38a",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/27496291637"
    },
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.9",
      "date": "2026-06-14T10:51:35.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "23fbe39df5dde0a3d0e6e89d689a91155ce7850b",
      "fileid": "0bea21fe94dc26d61376098f5f7bbcc3db5c2386c5abd875629fe42dc09e40d3",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/27496291637"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.9",
      "date": "2026-06-14T10:51:52.000Z",
      "distro": "noble",
      "arch": "aarch64",
      "commit": "23fbe39df5dde0a3d0e6e89d689a91155ce7850b",
      "fileid": "a5a4274a3f9fb2c23354053f89cd3ce419da19fefce5332b286ee5e49e4bdbc9",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/27496291637"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.9",
      "date": "2026-06-14T10:51:52.000Z",
      "distro": "noble",
      "arch": "x86_64",
      "commit": "23fbe39df5dde0a3d0e6e89d689a91155ce7850b",
      "fileid": "46c66b66eab7eaf9c0677f883e9aec95556e9c18004e6f9a25f2e6528c78cc99",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/27496291637"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.9",
      "date": "2026-06-14T10:51:53.000Z",
      "arch": "emscripten",
      "commit": "23fbe39df5dde0a3d0e6e89d689a91155ce7850b",
      "fileid": "01889f876da9e179ab5db002a0fdcd07cd60ac1e1696365ca49202e5b8d03dcd",
      "status": "success",
      "buildurl": "https://github.com/r-universe/cran/actions/runs/27496291637"
    }
  ]
}